Plot results of clustering based on predicted cell proportions

Color spots on the spatial coordinates according to the results of clustering based on predicted proportions.

Usage

plotSpatialClustering(
  object,
  index.st,
  method,
  k.nn,
  k.centers,
  colors,
  size.point = 1,
  title = NULL,
  theme = NULL
)

Arguments

object

A SpatialDDLS object.

index.st

Index of the spatial transcriptomics data to be plotted. It can be either a position or a name if a named list of SpatialExperiment objects was provided.

method

Clustering method results to plot. It can be "graph" or "k.means". If missing, the first configuration found in the object will be plotted.

k.nn

Number of nearest neighbors used if method == "graph".

k.centers

Number of k centers used if method == "k.means".

colors

Vector of colors to be used.

size.point

Size of points (0.1 by default).

title

Title of plot.

theme

ggplot2 theme.

Value

A ggplot object.

See also

spatialPropClustering deconvSpatialDDLS